Table 2.

Haplotype frequencies of 17 polymutants (K38A, 1892) of nsp3, T492 of nsp4, (P132, V247, T280, S284) of 3C-like proteinase, I189 of nsp6, P323 of RdRp, I42 of Exonuclease, T9 of envelope protein, (D3, Q19, A63) of membrane glycoprotein, (P13, R203, G204) of nucleocapsid phosphoprotein, all of which locate outside of the spike gene, observed among all Omicron viruses.

Polymutant Haplotype	Frequency	nsp3.K38	nsp3-A1892	nsp4-T492	nsp5-P132	nsp5-V247	nsp5-T280	nsp5-S284	nsp6-I189	RdRp-P323	nsp14-I42	E-T9	M-D3	M-Q19	M-A63	N-P13	N-R203	N-G204
	Mutant	R	T	I	H	V	T	S	V	L	V	I	G	E	T	L	K	R
RTIHVTSVLVIGETLKR	4131	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
RTIHVTSVLVIDETLKR	52	.	.	.	.	.	.	.	.	.	.	.	D	.	.	.	.	.
RTIHVTSVLVIGETPKR	18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	P	.	.
KAIHVTSILVIDETLKR	13	K	A	.	.	.	.	.	I	.	.	.	D	.	.	.	.	.
RTIHVTSVLVIGEALKR	11	.	.	.	.	.	.	.	.	.	.	.	.	.	A	.	.	.
RTIPVTSVLVIDETLKR	6	.	.	.	P	.	.	.	.	.	.	.	D	.	.	.	.	.
RTIHVTSVLVIDQALKR	5	.	.	.	.	.	.	.	.	.	.	.	D	Q	A	.	.	.
RTIYVTSVLVIGETLKR	5	.	.	.	Y	.	.	.	.	.	.	.	.	.	.	.	.	.
rare haplotypes (<5)	55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.